Dear friend,
The larger the organization becomes, the bigger would be the issues to be handled. Just because you have got a multitude of employees under a single roof, you can not expect to be exempted from the provisions of maintaining registers, notices etc., which are the basic documents of proving the no and names of the people employed. May be the maintenance and production of such documents to inspecting authorities dispensed with when the Inspecting Agencies are empowered access to your computers where such data are stored by you. Till then, you have to follow the existing manual methods of compliance by creating separate section for this purpose. Regarding your second query, pl go through the recent amendment to section 6 of the Payment of Wages Act,1936.